In vivo introduction of unpreferred synonymous codons into the drosophila Adh gene results in reduced levels of ADH protein

Genetics

Volumn 163, Issue 1, 2003, Pages 239-243

  Carlini, David B ^a   Stephan, Wolfgang ^b  

^a AMERICAN UNIVERSITY   (United States)

^b UNIVERSITY OF MUNICH   (Germany)

Author keywords

[No Author keywords available]

Indexed keywords

ALCOHOL DEHYDROGENASE; TRANSFER RNA;

ANIMAL EXPERIMENT; ARTICLE; CODON; CONTROLLED STUDY; DROSOPHILA MELANOGASTER; EMPIRICISM; FEMALE; GENE INSERTION; GENE MUTATION; GENE SEQUENCE; GENETIC CODE; IN VIVO STUDY; MALE; NATURAL SELECTION; NONHUMAN; NUCLEOTIDE SEQUENCE; POPULATION GENETICS; PRIORITY JOURNAL; PROTEIN ANALYSIS; PROTEIN SYNTHESIS; RNA TRANSLATION; SITE DIRECTED MUTAGENESIS; THEORY; TRANSLATION INITIATION;

ALCOHOL DEHYDROGENASE; ANALYSIS OF VARIANCE; ANIMALS; CODON; DROSOPHILA; GENETIC CODE;

ANIMALIA; DROSOPHILA MELANOGASTER; MELANOGASTER;

EID: 0037274714     PISSN: 00166731     EISSN: None     Source Type: Journal    
DOI: None     Document Type: Article

References (35)

1. AKASHI, H., 1995 Inferring weak selection from patterns of polymorphism and divergence at "silent" sites in Drosophila DNA. Genetics 139: 1067-1076.
2. AKASHI, H., 1996 Molecular evolution between Drosophila melanogaster and D. simulans: reduced codon bias, faster rates of amino acid substitution, and larger proteins in D. melanogaster. Genetics 144: 1297-1307.
3. ANDERSSON, S. G., and C. G. KURLAND, 1990 Codon preferences in free-living microorganisms. Microbiol. Rev. 54: 198-210.
4. BENYAJATI, C., A. R. PLACE, N. WANCE, E. PENTZ and W. SOFFER, 1982 Deletions at intervening sequence splice sites in the alcohol dehydrogenase gene of Drosophila. Nucleic Acids Res. 10: 7261-7272.
5. BULMER, M., 1991 The selection-mutation-drift theory of synonymous codon usage. Genetics 129: 897-907.
6. CARLINI, D. B., Y. CHEN and W. STEPHAN, 2001 The relationship between third-codon position nucleotide content, codon bias, mRNA secondary structure and gene expression in the drosophilid alcohol dehydrogenase genes Adh and Adhr. Genetics 159: 623-633.
7. DURET, L., and D. MOUCHIROUD, 1999 Expression pattern and, surprisingly, gene length shape codon usage in Caenorhabditis, Drosophila, and Arabidopsis. Proc. Natl. Acad. Sci. USA 96: 4482-4487.
8. EWENS, W.J., 1979 Mathematical Population Genetics. Springer-Verlag, Berlin.
9. EYRE-WALKER, A., and M. BULMER, 1993 Reduced synonymous substitution rate at the start of enterobacterial genes. Nucleic Acids Res. 19: 4599-4603.
10. GOUY, M., and C. GAUTIER, 1982 Codon usage in bacteria: correlation with gene expressivity. Nucleic Acids Res. 10: 7055-7074.
11. GROSJEAN, H., and W. FIERS, 1982 Preferential codon usage in prokaryotic genes: the optimal codon-anticodon interaction energy and the selective codon usage in efficiently expressed genes. Gene 18: 199-209.
12. HARTL, D. L., D. E. DYKHUIZEN and A. M. DEAN, 1985 Limits of adaptation - the evolution of selective neutrality. Genetics 111: 655-674.
13. IKEMURA, T., 1981 Correlation between the abundance of Escherichia coli transfer RNAs and the occurrence of the respective codons in its protein genes: a proposal for a synonymous codon choice that is optimal for the E. coli translational system. J. Mol. Biol. 151: 389-409.
14. IKEMURA, T., 1982 Correlation between the abundance of yeast transfer RNAs and the occurrence of the respective codons in its protein genes: differences in synonymous codon choice patterns of yeast and Escherichia coli with reference to the abundance of isoaccepting transfer RNAs. J. Mol. Biol. 158: 573-597.
15. IVANOV, I. G., A. A. SARAFFOVA and M. G. ABOUHAIDAR, 1997 Unusual effect of clusters of rare arginine (AGG) codons on the expression of human interferon alpha 1 gene in Escherichia coli. Int. J. Biochem. Cell Biol. 29: 659-666.
16. KIM, C. H., O. YOUNGHOON and T. H. LEE, 1997 Codon optimization for high-level expression of human erythropoietin (EPO) in mammalian cells. Gene 199: 293-301.
17. KIMURA, M., 1983 The Neutral Theory of Molecular Evolution. Cambridge University Press, Cambridge, UK.
18. KREITMAN, M., 1983 Nucleotide polymorphism at the alcohol dehydrogenase locus of Drosophila melanogaster. Nature 304: 412-417.
19. LANGLEY, C. H., R. A. VOELKER, A. J. L. BROWN, S. OHNISHI, B. DICKSON et al., 1981 Null allele frequencies at allozyme loci in natural populations of Drosophila melanogaster. Genetics 99: 151-156.
20. LI, W.-H., 1987 Models of nearly neutral mutations with particular implications for nonrandom usage of synonymous codons. J. Mol. Evol. 24: 337-345.
21. LOWRY, O. N, N. J. ROSENBROUGH, L. A. FARR and R. J. RANDALL, 1951 Protein measurement with the Folin phenol reagent. J. Biol. Chem. 193: 265-275.
22. MARONI, G., 1978 Genetic control of alcohol dehydrogenase levels in Drosophila. Biochem. Genet. 16: 509-523.
23. MATHEWS, D. H., J. SABINA, M. ZUKER and D. H. TURNER, 1999 Expanded sequence dependence of thermodynamic parameters improves prediction of RNA secondary structure. J. Mol. Biol. 288: 911-940.
24. McVEAN, G. A. T., and J. VIEIRA, 2001 Inferring parameters of mutation, selection and demography from patterns of synonymous site evolution in Drosophila. Genetics 157: 245-257.
25. MORIYAMA, E. N., and J. R. POWELL, 1997 Codon usage bias and tRNA abundance in Drosophila. J. Mol. Evol. 45: 514-523.
26. NAKAMURA, V, T. GOJOBORI and T. IKEMURA, 2000 Codon usage tabulated from the international DNA sequence databases: status for the year 2000. Nucleic Acids Res. 28: 292.
27. PARSCH J., S. TANDA and W. STEPHAN, 1997 Site-directed mutations reveal long-range compensatory interactions in the Adh gene of Drosophila melanogaster. Proc. Natl. Acad. Sci. USA 94: 928-933.
28. PARSCH, J., J. M. BRAVERMAN and W. STEPHAN, 2000 Comparative sequence analysis and patterns of covariation in RNA secondary structures. Genetics 154: 909-921.
29. PATTON, J. S., X. V. GOMEZ and P. K. GEYER, 1992 Position-independent germline transformation in Drosophila using a cuticle pigmentation gene as a selectable marker. Nucleic Acids Res. 20: 5859-5860.
30. POWELL, J. R., 1997 Progress and Prospects in Evolutionary Biology: The Drosophila Model. Oxford University Press, New York.
31. ROBERTSON, H. M., C. R. PRESTON, R. W. PHILLIS, D. M. JOHNSON-SCHLITZ, W. K. BENZ et al., 1988 A stable genomic source of P-element transposase in Drosophila melanogaster. Genetics 118: 461-470.
32. SHARP, P. M., and W.-H. LI, 1986 An evolutionary perspective on synonymous codon usage in unicellular organisms. J. Mol. Evol. 24: 28-38.
33. SÖRENSEN, M. A., C. G. KURLAND and S. PEDERSEN, 1989 Codon usage determines translation rate in Escherichia coli. J. Mol. Biol. 207: 365-377.
34. VARENNE, S., D. BATY, H. VERHEIJ, D. SHIRE and C. LAZDUNSKI, 1989 The maximum rate of gene expression is dependent on the downstream context of unfavourable codons. Biochimie 71: 1221-1229.
35. ZOLOTUKHIN, S., M. POTTER, W. W. HAUSWIRTH, J. GUY and N. MUZYCZKA, 1996 A "humanized" green fluorescent protein cDNA adapted for high-level expression in mammalian cells. J. Virol. 70: 4646-4654.